Table 1

Two-by-two contingency table for flagged and unflagged genes in a GO category

Flagged genes

Non-flagged genes

Total

In category

nf

n - nf

n

Not in category

Nf - nf

(N - n) - (Nf - nf)

N - n

Total

Nf

N - Nf

N

nf is the number of flagged genes in the category, n is the total number of genes in the category, Nf is the number of flagged genes on the microarray, and N is the total number of genes on the microarray. All numbers are those obtained after
dereplicating multiple instances of the same gene.